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Journal of Biomedical Semantics

, 5:43

First Online: 18 October 2014Received: 20 June 2014Accepted: 06 October 2014

Abstract

Bacterial identification and characterization at subspecies level is commonly known as Microbial Typing. Currently, these methodologies are fundamental tools in Clinical Microbiology and bacterial population genetics studies to track outbreaks and to study the dissemination and evolution of virulence or pathogenicity factors and antimicrobial resistance. Due to advances in DNA sequencing technology, these methods have evolved to become focused on sequence-based methodologies. The need to have a common understanding of the concepts described and the ability to share results within the community at a global level are increasingly important requisites for the continued development of portable and accurate sequence-based typing methods, especially with the recent introduction of Next Generation Sequencing NGS technologies. In this paper, we present an ontology designed for the sequence-based microbial typing field, capable of describing any of the sequence-based typing methodologies currently in use and being developed, including novel NGS based methods. This is a fundamental step to accurately describe, analyze, curate, and manage information for microbial typing based on sequence based typing methods.

KeywordsOntology Knowledge representation Microbial typing methods Electronic supplementary materialThe online version of this article doi:10.1186-2041-1480-5-43 contains supplementary material, which is available to authorized users.

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Author: Cátia Vaz - Alexandre P Francisco - Mickael Silva - Keith A Jolley - James E Bray - Hannes Pouseele - Joerg Rothganger

Source: https://link.springer.com/



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